NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0164305_10066994

Scaffold Ga0164305_10066994


Overview

Basic Information
Taxon OID3300012989 Open in IMG/M
Scaffold IDGa0164305_10066994 Open in IMG/M
Source Dataset NameSoil microbial communities amended with pyrogenic organic matter from upstate New York, USA - Whitman soil sample_237_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2178
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Amended Soil Microbial Communities From New York, Usa To Study Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: Mt. Pleasant research farm, Cornell University, New York
CoordinatesLat. (o)42.4531Long. (o)-76.3842Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008790Metagenome / Metatranscriptome328Y
F018651Metagenome / Metatranscriptome234Y
F067623Metagenome / Metatranscriptome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0164305_100669941F018651N/AFRQIMRDAEVANAIVPVVRQHRLTQAATEEALRELAIPRAANIARICVSLGL*
Ga0164305_100669942F008790GAGGMITPILRSKDAMATWLIDVAGNVAISISDLALLKRIQSLIIPAFGSTEEAMLWGSDLNPEQRATLLDMQRSVSNAARAEADPQRMVNLATQSQMMREAGEAAPFDGHR*
Ga0164305_100669944F067623N/ALKDVIKSEMETAARQRSEIYFMRHKASRRRAVLFRQLRASATNQICDLKQLTLGNTYVTQELFSGQRLLKGFAP*

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